Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F28 I1 R2
|
328 |
63.0 |
4687567 |
98.0% |
4593815 |
65.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,493,301 |
+A |
coding (851/1080 nt) |
frwC ← |
predicted enzyme IIC component of PTS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,493,298 | 1 | . | A | 98.9%
| 275.2
/ ‑3.4
| 92 | coding (854/1080 nt) | frwC | predicted enzyme IIC component of PTS |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base A (49/42); total (49/43) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
Only 100 of 103 total aligned reads displayed.
GGCAGCACAATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑AAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGAATCGCC > W3110S.gb/3493229‑3493363
|
ggCAGCACAATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGcaccac > 1:2908520/1‑70 (MQ=255)
acaATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaact > 1:1356472/1‑67 (MQ=255)
acaATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaact > 1:4494431/1‑67 (MQ=255)
acaATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaact > 1:1569096/1‑67 (MQ=255)
acaATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaact > 1:3673124/1‑67 (MQ=255)
tCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAAcc < 1:2186587/71‑1 (MQ=255)
tCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAAcc > 1:2930281/1‑71 (MQ=255)
tCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAAcc < 1:1848577/71‑1 (MQ=255)
tCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAAc > 1:3144808/1‑70 (MQ=255)
cAGACAACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAAcc > 1:2974530/1‑70 (MQ=255)
gACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGAc < 1:1135207/71‑1 (MQ=255)
gACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGAc < 1:4581590/71‑1 (MQ=255)
ccaccCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCa > 1:1081914/1‑71 (MQ=255)
caccCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCTACCat < 1:1367852/71‑1 (MQ=255)
caccCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACTat < 1:413529/71‑1 (MQ=255)
caccCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCat < 1:3172858/71‑1 (MQ=255)
caccCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCat < 1:854461/71‑1 (MQ=255)
caccCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCat < 1:2137931/71‑1 (MQ=255)
caccCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑AAACCTGAACCGACCat < 1:3337242/71‑1 (MQ=255)
ccAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCatgatg > 1:530754/1‑71 (MQ=255)
ccAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCatgatg > 1:1334673/1‑71 (MQ=255)
ccAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCatgatg > 1:943172/1‑71 (MQ=255)
cTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCTACCATGATggaagg < 1:2187113/71‑1 (MQ=255)
cTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:3728017/71‑1 (MQ=255)
cTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:1089566/71‑1 (MQ=255)
cTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:4431773/71‑1 (MQ=255)
cTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:2982784/71‑1 (MQ=255)
cTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:754701/71‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaaggaa > 1:2315479/1‑71 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaaggaa > 1:2580879/1‑71 (MQ=255)
cATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagga < 1:1535159/69‑1 (MQ=255)
cATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:2846081/68‑1 (MQ=255)
cATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAAt < 1:654904/71‑1 (MQ=255)
cATAGCACTGCGCACCGACCAGCGCCGAAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAAt < 1:2672746/71‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGa < 1:3617619/71‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGa < 1:1835821/71‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGa < 1:3265386/71‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGa < 1:2807371/71‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGa < 1:808666/71‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGa > 1:2326174/1‑71 (MQ=255)
gCACTGCGCACCGCCCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGaca > 1:3776659/1‑71 (MQ=255)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGaa > 1:2690187/1‑47 (MQ=38)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGaa > 1:4584204/1‑47 (MQ=38)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGa > 1:2276868/1‑51 (MQ=38)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCatg > 1:1959357/1‑56 (MQ=39)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaaggaa > 1:1689045/1‑66 (MQ=255)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAAt > 1:2803396/1‑67 (MQ=255)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGaca > 1:2788639/1‑71 (MQ=255)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGaca > 1:2434097/1‑71 (MQ=255)
gCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGaca > 1:303765/1‑71 (MQ=255)
cTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGc < 1:3789032/71‑1 (MQ=255)
tGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:3898809/60‑1 (MQ=255)
tGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:1940941/60‑1 (MQ=255)
gcgcACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAg > 1:1275068/1‑71 (MQ=255)
gcgcACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa > 1:4445190/1‑36 (MQ=255)
cgcACGGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGc > 1:2493045/1‑71 (MQ=255)
cgcACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGc > 1:566173/1‑71 (MQ=255)
gcACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:144932/57‑1 (MQ=39)
cGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATc < 1:4206556/71‑1 (MQ=255)
cGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATc < 1:753602/71‑1 (MQ=255)
cGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATc < 1:1181284/71‑1 (MQ=255)
gcgcCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAgc < 1:1895033/71‑1 (MQ=255)
cgccgcAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAgcg > 1:3426649/1‑71 (MQ=255)
cgccgcAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAgcg > 1:2097316/1‑71 (MQ=255)
cgccgcAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAgcg > 1:3165307/1‑71 (MQ=255)
gccgcAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaaggaa > 1:1454200/1‑47 (MQ=39)
gccgcAGTTACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAgcgg > 1:490150/1‑71 (MQ=255)
cAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagga < 1:1367407/42‑1 (MQ=255)
cAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagga < 1:3712414/42‑1 (MQ=255)
cAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagga < 1:3150647/42‑1 (MQ=255)
ttACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:2321156/38‑1 (MQ=38)
ttACTGCACCACAAAA‑CTGAACCGACCATGATggaagg < 1:4010313/38‑1 (MQ=38)
tACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAgg > 1:2215352/1‑70 (MQ=255)
tACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAgg > 1:2520118/1‑70 (MQ=255)
tACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAgg > 1:713655/1‑70 (MQ=255)
tACTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAgg > 1:4101341/1‑70 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGaaa > 1:3883251/1‑67 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAg > 1:3107740/1‑68 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGaa > 1:642337/1‑71 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGaa > 1:3491298/1‑71 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGaa > 1:2603950/1‑71 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGaa > 1:2385138/1‑71 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGaa > 1:3100736/1‑71 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGaa > 1:3425972/1‑71 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGaa > 1:3135558/1‑71 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGaa > 1:3407848/1‑71 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa > 1:4350867/1‑70 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa < 1:3551975/70‑1 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa < 1:883358/70‑1 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa < 1:1701069/70‑1 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa < 1:415576/70‑1 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa > 1:2060833/1‑70 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa > 1:1969076/1‑70 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa > 1:4545293/1‑70 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGa < 1:4439089/70‑1 (MQ=255)
caccacaAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGAATCGc < 1:4118535/71‑1 (MQ=255)
caccacaAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGAATCGc < 1:3584047/71‑1 (MQ=255)
accacaAAA‑CTGAACCGACCATTATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGAATCGcc < 1:1392130/71‑1 (MQ=255)
accacaAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGAATCGcc < 1:3864295/71‑1 (MQ=255)
accacaAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGAATCGcc < 1:1807212/71‑1 (MQ=255)
|
GGCAGCACAATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑AAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGGAATCGCC > W3110S.gb/3493229‑3493363
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
